If more than 50 genes/sequences are provided as input, then the associated running time can take some time. Therefore it is advisable to provide an email-address in case you are running the Interactive Phylogenetics Module with more than 50 genes. After processing you will be send an email with a link to the created phylogenetic tree.
The selection modi are exclusive: please choose either Gene selection or Species selection.
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":"";
$selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":"";
$num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0;
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ) $local_species = 'acertr' $disabled = '' $selected = ''
include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ) $local_species = 'ach' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ) $local_species = 'aar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ) $local_species = 'amhyb' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ) $local_species = 'aly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ) $local_species = 'ath' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ) $local_species = 'arhy' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ) $local_species = 'ama' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ) $local_species = 'bvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ) $local_species = 'bca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ) $local_species = 'bna' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ) $local_species = 'bol' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ) $local_species = 'bra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ) $local_species = 'camsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ) $local_species = 'cansat' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ) $local_species = 'cru' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ) $local_species = 'can' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ) $local_species = 'chi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ) $local_species = 'cpa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ) $local_species = 'cfa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ) $local_species = 'cil' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ) $local_species = 'cde' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $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 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ) $local_species = 'cla' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ) $local_species = 'ccl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ) $local_species = 'ccan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ) $local_species = 'col' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ) $local_species = 'cav' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ) $local_species = 'cme' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ) $local_species = 'csa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ) $local_species = 'dca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ) $local_species = 'din' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ) $local_species = 'dzi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ) $local_species = 'eca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ) $local_species = 'egut' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ) $local_species = 'egr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ) $local_species = 'esa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ) $local_species = 'fve' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ) $local_species = 'fan' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ) $local_species = 'gma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ) $local_species = 'ghi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ) $local_species = 'gra' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ) $local_species = 'han' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ) $local_species = 'hma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ) $local_species = 'lsa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ) $local_species = 'lonja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ) $local_species = 'lja' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ) $local_species = 'lal' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ) $local_species = 'mbi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ) $local_species = 'mdo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ) $local_species = 'mes' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $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 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ) $local_species = 'nta' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ) $local_species = 'oeu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ) $local_species = 'osa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ) $local_species = 'pso' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ) $local_species = 'pax' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ) $local_species = 'pvu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ) $local_species = 'ptr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ) $local_species = 'pgr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ) $local_species = 'qlo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ) $local_species = 'rsi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ) $local_species = 'rch' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ) $local_species = 'sbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ) $local_species = 'sbo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ) $local_species = 'shi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ) $local_species = 'sed' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ) $local_species = 'sly' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ) $local_species = 'spe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ) $local_species = 'stu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ) $local_species = 'sas' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ) $local_species = 'tha' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ) $local_species = 'tca' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ) $local_species = 'tpr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ) $local_species = 'twi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ) $local_species = 'tar' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ) $local_species = 'ugi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ) $local_species = 'vma' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ) $local_species = 'vpl' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ) $local_species = 'vmu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ) $local_species = 'vvi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $species_info = array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) $local_species = 'zma' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ), 'gf_id' => 'HOM05D001060', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001060' ), 'data_identifier' => 'HOM05D001060', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001060', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '575', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p10100' => 'bna', 'A03p40040' => 'bna', 'A05p16470' => 'bna', 'A05p32680' => 'bna', 'A06p06260' => 'bna', 'A09p65420' => 'bna', 'Aa31LG10G5880' => 'aar', 'Aa31LG1G5460' => 'aar', 'Aa31LG6G830' => 'aar', 'Aa31LG8G4080' => 'aar', 'Aa31sc828G10' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_340.439__440' => 'aag', 'AagrBONN_evm.TU.Sc2ySwM_362.2689' => 'aag', 'Actinidia07669' => 'ach', 'Actinidia11700' => 'ach', 'Actinidia11701' => 'ach', 'Actinidia13357' => 'ach', 'Actinidia14257' => 'ach', 'Actinidia16745' => 'ach', 'Actinidia18834' => 'ach', 'Actinidia19487' => 'ach', 'Actinidia22844' => 'ach', 'Actinidia31538' => 'ach', 'Actinidia31577' => 'ach', 'Actinidia35205' => 'ach', 'Ah.01g013900' => 'amhyb', 'Ah.02g121400' => 'amhyb', 'Ah.03g147780' => 'amhyb', 'Ah.07g201440' => 'amhyb', 'AL1G20090' => 'aly', 'AL3G53130' => 'aly', 'AL7G36310' => 'aly', 'AL7G38810' => 'aly', 'AL7G44720' => 'aly', 'Aqoxy1G01855' => 'aox', 'Aqoxy1G03793' => 'aox', 'Aqoxy1G03796' => 'aox', 'Aqoxy1G04247' => 'aox', 'Aqoxy4G00145' => 'aox', 'Aqoxy5G02872' => 'aox', 'Aqoxy6G00418' => 'aox', 'arahy.Tifrunner.gnm1.ann1.1EM5AW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6GE0SS' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7E2TSQ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7R2GDL' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A3SZXW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.D04KR2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.F3Y113' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HS5Z9Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NNA8KD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PM8GQZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RZF58L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T2CQE4' => 'arhy', 'AT1G09570' => 'ath', 'AT2G18790' => 'ath', 'AT4G16250' => 'ath', 'AT4G18130' => 'ath', 'AT5G35840' => 'ath', 'ATR0693G161' => 'atr', 'ATR0709G003' => 'atr', 'ATR0796G080' => 'atr', 'ATR0810G132' => 'atr', 'ATR0827G038' => 'atr', 'ATR0827G073' => 'atr', 'Atru.chr10.1393' => 'acertr', 'Atru.chr10.1394' => 'acertr', 'Atru.chr10.1403' => 'acertr', 'Atru.chr10.1404' => 'acertr', 'Atru.chr12.1503' => 'acertr', 'Atru.chr12.1504' => 'acertr', 'Atru.chr12.1508' => 'acertr', 'Atru.chr4.2997' => 'acertr', 'Atru.chr4.2998' => 'acertr', 'Atru.chr6.3390' => 'acertr', 'Atru.chr6.3392' => 'acertr', 'AUR62003557' => 'cqu', 'AUR62015008' => 'cqu', 'AUR62016209' => 'cqu', 'AUR62017871' => 'cqu', 'AUR62029114' => 'cqu', 'AUR62039279' => 'cqu', 'BcaB02g08050' => 'bca', 'BcaB04g18924' => 'bca', 'BcaB06g25798' => 'bca', 'BcaC01g03793' => 'bca', 'BcaC05g28834' => 'bca', 'BcaC07g37970' => 'bca', 'BcaC07g37971' => 'bca', 'BcaC07g41872' => 'bca', 'BcaC07g42187' => 'bca', 'BcaC08g44236' => 'bca', 'BcaC08g44314' => 'bca', 'BcaC08g44315' => 'bca', 'BcaC09g51553' => 'bca', 'BcaNung00030' => 'bca', 'BolC1t01168H' => 'bol', 'BolC2t10181H' => 'bol', 'BolC3t17135H' => 'bol', 'BolC5t29513H' => 'bol', 'BolC5t33684H' => 'bol', 'BolC6t36934H' => 'bol', 'BolC8t52475H' => 'bol', 'BraA01t00956Z' => 'bra', 'BraA03t13152Z' => 'bra', 'BraA05t20552Z' => 'bra', 'BraA05t22091Z' => 'bra', 'BraA06t23837Z' => 'bra', 'BraA09t41887Z' => 'bra', 'BraA10t43134Z' => 'bra', 'C01p11920' => 'bna', 'C02p41650' => 'bna', 'C03p48570' => 'bna', 'C05p07590' => 'bna', 'C05p49390' => 'bna', 'C06p17390' => 'bna', 'C08p49390' => 'bna', 'CAN.G177.7' => 'can', 'CAN.G1805.4' => 'can', 'CAN.G244.12' => 'can', 'CAN.G244.13' => 'can', 'CAN.G257.48' => 'can', 'CAN.G257.49' => 'can', 'CAN.G277.8' => 'can', 'CAN.G429.2' => 'can', 'CAN.G945.2' => 'can', 'CANSAT35G0794' => 'cansat', 'CANSAT54G1448' => 'cansat', 'CANSAT78G1047' => 'cansat', 'CARHR009540' => 'chi', 'CARHR092300' => 'chi', 'CARHR216760' => 'chi', 'CARHR224870' => 'chi', 'Carub.0001s0891' => 'cru', 'Carub.0003s3305' => 'cru', 'Carub.0007s2321' => 'cru', 'Carub.0007s2528' => 'cru', 'Carub.0007s3166' => 'cru', 'Ca_00979_v3' => 'car', 'Ca_02583_v3' => 'car', 'Ca_09265_v3' => 'car', 'Ca_10217_v3' => 'car', 'CBR_g52258' => 'cbr', 'Cc00_g07710' => 'ccan', 'Cc02_g36930' => 'ccan', 'Cc03_g00790' => 'ccan', 'CDE02G0461' => 'cde', 'CDE02G2294' => 'cde', 'CDE04G2601' => 'cde', 'CDE05G0685' => 'cde', 'CDE07G0765' => 'cde', 'CDE08G1080' => 'cde', 'CDE09G0282' => 'cde', 'CDE11G1195' => 'cde', 'CDE12G0220' => 'cde', 'Cfa001026' => 'cfa', 'Cfa004404' => 'cfa', 'Cfa014229' => 'cfa', 'Cfa015312' => 'cfa', 'Cfa025350' => 'cfa', 'Ciclev10004218m.g' => 'ccl', 'Ciclev10014092m.g' => 'ccl', 'Ciclev10014096m.g' => 'ccl', 'Ciclev10027712m.g' => 'ccl', 'CiPaw.01G138400' => 'cil', 'CiPaw.03G281500' => 'cil', 'CiPaw.08G121400' => 'cil', 'CiPaw.09G129200' => 'cil', 'CiPaw.09G129300' => 'cil', 'CiPaw.10G096000' => 'cil', 'ClCG02G002860' => 'cla', 'ClCG03G007180' => 'cla', 'ClCG05G006570' => 'cla', 'ClCG08G009050' => 'cla', 'ClCG08G009080' => 'cla', 'COL.COLO4_05474' => 'col', 'COL.COLO4_22796' => 'col', 'COL.COLO4_22929' => 'col', 'COL.COLO4_33335' => 'col', 'COL.COLO4_33336' => 'col', 'COL.COLO4_34612' => 'col', 'Cpa.g.sc136.25' => 'cpa', 'Cpa.g.sc136.26' => 'cpa', 'Cpa.g.sc17.112' => 'cpa', 'Cpa.g.sc48.231' => 'cpa', 'Cpa.g.sc9.54' => 'cpa', 'Cpa.g.sc9.55' => 'cpa', 'CsaV3_1G032770' => 'csa', 'CsaV3_3G015190' => 'csa', 'CsaV3_6G036060' => 'csa', 'CsaV3_6G036100' => 'csa', 'CsaV3_7G002530' => 'csa', 'CSS0015487' => 'camsi', 'CSS0017891' => 'camsi', 'CSS0024372' => 'camsi', 'CSS0025750' => 'camsi', 'CSS0031372' => 'camsi', 'CSS0032712' => 'camsi', 'CSS0037807' => 'camsi', 'CSS0039391' => 'camsi', 'DCAR_001880' => 'dca', 'DCAR_003036' => 'dca', 'DCAR_010282' => 'dca', 'DCAR_012892' => 'dca', 'DCAR_026982' => 'dca', 'DCAR_029306' => 'dca', 'DCAR_030471' => 'dca', 'Dinv03628' => 'din', 'Dinv15165' => 'din', 'Dinv24530' => 'din', 'Dinv26609' => 'din', 'Dinv32297' => 'din', 'Dinv33923' => 'din', 'Dinv44284' => 'din', 'Duzib052G0473' => 'dzi', 'Duzib138G1688' => 'dzi', 'Duzib151G0400' => 'dzi', 'Duzib177G0101' => 'dzi', 'Duzib235G1435' => 'dzi', 'ECA233G1443' => 'eca', 'ECA236G1396' => 'eca', 'ECA236G2004' => 'eca', 'ECA236G4006' => 'eca', 'ECA248G1718' => 'eca', 'EL10Ac3g05509' => 'bvu', 'EL10Ac6g15315' => 'bvu', 'EL10Ac9g22683' => 'bvu', 'Eucgr.A00380' => 'egr', 'Eucgr.B01356' => 'egr', 'Eucgr.D00342' => 'egr', 'Eucgr.K03574' => 'egr', 'FAN02G0511' => 'fan', 'FAN02G4497' => 'fan', 'FAN05G1821' => 'fan', 'FAN05G4992' => 'fan', 'FAN07G2275' => 'fan', 'FAN09G4358' => 'fan', 'FAN09G4365' => 'fan', 'FAN11G2971' => 'fan', 'FAN12G2724' => 'fan', 'FAN14G1192' => 'fan', 'FAN14G2105' => 'fan', 'FAN16G0063' => 'fan', 'FAN19G2308' => 'fan', 'FAN21G1405' => 'fan', 'FAN26G2453' => 'fan', 'FAN28G0996' => 'fan', 'FvH4_1g06850' => 'fve', 'FvH4_3g06380' => 'fve', 'FvH4_4g19750' => 'fve', 'FvH4_6g08760' => 'fve', 'FvH4_6g40650' => 'fve', 'Glyma.03G227267' => 'gma', 'Glyma.03G227333' => 'gma', 'Glyma.09G035500' => 'gma', 'Glyma.09G088500' => 'gma', 'Glyma.10G141400' => 'gma', 'Glyma.15G140000' => 'gma', 'Glyma.15G196500' => 'gma', 'Glyma.19G224200' => 'gma', 'Glyma.20G090000' => 'gma', 'Gohir.A10G037800' => 'ghi', 'Gohir.A10G172500' => 'ghi', 'Gohir.A11G149100' => 'ghi', 'Gohir.A11G261900' => 'ghi', 'Gohir.A13G172900' => 'ghi', 'Gohir.D10G038800' => 'ghi', 'Gohir.D10G179000' => 'ghi', 'Gohir.D11G156200' => 'ghi', 'Gohir.D11G271900' => 'ghi', 'Gohir.D13G178700' => 'ghi', 'Gorai.007G166300' => 'gra', 'Gorai.007G292800' => 'gra', 'Gorai.011G040900' => 'gra', 'Gorai.011G200200' => 'gra', 'Gorai.013G203900' => 'gra', 'GSVIVG01021381001' => 'vvi', 'GSVIVG01030081001' => 'vvi', 'GSVIVG01031354001' => 'vvi', 'GSVIVG01034989001' => 'vvi', 'HanXRQChr01g0030991' => 'han', 'HanXRQChr02g0048561' => 'han', 'HanXRQChr04g0118411' => 'han', 'HanXRQChr05g0134721' => 'han', 'HanXRQChr06g0183081' => 'han', 'HanXRQChr07g0205931' => 'han', 'HanXRQChr08g0214731' => 'han', 'HanXRQChr08g0214741' => 'han', 'HanXRQChr11g0329031' => 'han', 'HanXRQChr15g0480001' => 'han', 'HanXRQChr16g0518821' => 'han', 'HanXRQChr16g0518831' => 'han', 'Haze_01300' => 'cav', 'Haze_05483' => 'cav', 'Haze_12624' => 'cav', 'Haze_12631' => 'cav', 'Haze_15002' => 'cav', 'Hma1.2p1_0012F.1_g007560' => 'hma', 'Hma1.2p1_0157F.1_g069520' => 'hma', 'Hma1.2p1_0545F.1_g175950' => 'hma', 'HPP92_014025' => 'vpl', 'HPP92_014026' => 'vpl', 'HPP92_016972' => 'vpl', 'HPP92_021086' => 'vpl', 'Hund01556' => 'sun', 'Hund03127' => 'sun', 'Hund11977' => 'sun', 'Hund12765' => 'sun', 'Lalb_Chr02g0147371' => 'lal', 'Lalb_Chr06g0167211' => 'lal', 'Lalb_Chr08g0233371' => 'lal', 'Lalb_Chr18g0058671' => 'lal', 'Lalb_Chr20g0120841' => 'lal', 'Lalb_Chr21g0309961' => 'lal', 'Lj1A1182G81' => 'lonja', 'Lj1g0025996' => 'lja', 'Lj3A831T84' => 'lonja', 'Lj3C831T9' => 'lonja', 'Lj5C313T8' => 'lonja', 'Lj5g0019635' => 'lja', 'Lj6C691G13' => 'lonja', 'Lj6g0004822' => 'lja', 'Lj6g0024888' => 'lja', 'Lj8A135G106' => 'lonja', 'Lj8A135T103' => 'lonja', 'Lsat_1_v5_gn_1_29260' => 'lsa', 'Lsat_1_v5_gn_1_41100' => 'lsa', 'Lsat_1_v5_gn_5_188040' => 'lsa', 'Lsat_1_v5_gn_7_30980' => 'lsa', 'Lsat_1_v5_gn_7_31000' => 'lsa', 'Lsat_1_v5_gn_7_96941' => 'lsa', 'Lsat_1_v5_gn_9_83701' => 'lsa', 'Manes.03G205100' => 'mes', 'Manes.09G182500' => 'mes', 'Manes.12G066001' => 'mes', 'Manes.15G117200' => 'mes', 'Mapoly0122s0054' => 'mpo', 'MBI07_g07807_MAGBIO' => 'mbi', 'MBI18_g03867_MAGBIO' => 'mbi', 'MBI18_g37556_MAGBIO' => 'mbi', 'MBI19_g03246_MAGBIO' => 'mbi', 'MBI19_g33770_MAGBIO' => 'mbi', 'MD04G1183900' => 'mdo', 'MD05G1291600' => 'mdo', 'MD09G1126400' => 'mdo', 'MD10G1267600' => 'mdo', 'MD12G1197200' => 'mdo', 'MD13G1153400' => 'mdo', 'MD16G1153800' => 'mdo', 'MD17G1116300' => 'mdo', 'MD17G1116500' => 'mdo', 'MD17G1116600' => 'mdo', 'MD17G1116700' => 'mdo', 'Medtr1g085160' => 'mtr', 'Medtr2g034040' => 'mtr', 'Medtr2g049520' => 'mtr', 'MELO3C002705.2' => 'cme', 'MELO3C006717.2' => 'cme', 'MELO3C024196.2' => 'cme', 'MELO3C026502.2' => 'cme', 'MELO3C026506.2' => 'cme', 'Migut.B00907' => 'egut', 'Migut.G00063' => 'egut', 'Migut.H01285' => 'egut', 'Migut.H01380' => 'egut', 'Migut.N00041' => 'egut', 'Migut.N00986' => 'egut', 'MSTRG.12247' => 'ama', 'MSTRG.21767' => 'ama', 'MSTRG.27904' => 'ama', 'MSTRG.5174' => 'ama', 'Nitab4.5_0000081g0020' => 'nta', 'Nitab4.5_0000647g0220' => 'nta', 'Nitab4.5_0001701g0200' => 'nta', 'Nitab4.5_0001867g0100' => 'nta', 'Nitab4.5_0003476g0010' => 'nta', 'Nitab4.5_0003714g0010' => 'nta', 'Nitab4.5_0009346g0010' => 'nta', 'Nitab4.5_0010301g0010' => 'nta', 'Nitab4.5_0011510g0010' => 'nta', 'Nitab4.5_0016503g0010' => 'nta', 'Nn1g03202' => 'nnu', 'Nn1g07494' => 'nnu', 'Nn2g11894' => 'nnu', 'Nn3g20903' => 'nnu', 'Nn4g24521' => 'nnu', 'Nn4g25268' => 'nnu', 'Nn4g25561' => 'nnu', 'Oeu000176.1' => 'oeu', 'Oeu003760.1' => 'oeu', 'Oeu006908.1' => 'oeu', 'Oeu021520.1' => 'oeu', 'Oeu033694.2' => 'oeu', 'Oeu046874.1' => 'oeu', 'Oeu063626.1' => 'oeu', 'Os03g0309200' => 'osa', 'Os03g0719800' => 'osa', 'Os03g0752100' => 'osa', 'Peaxi162Scf00035g00513' => 'pax', 'Peaxi162Scf00164g01131' => 'pax', 'Peaxi162Scf00214g00069' => 'pax', 'Peaxi162Scf00228g00320' => 'pax', 'Peaxi162Scf00802g00239' => 'pax', 'PGR004G1575' => 'pgr', 'PGR031G2588' => 'pgr', 'PGR044G0307' => 'pgr', 'PGR044G2588' => 'pgr', 'PGSC0003DMG400003072' => 'stu', 'PGSC0003DMG400015766' => 'stu', 'PGSC0003DMG400017396' => 'stu', 'PGSC0003DMG400024017' => 'stu', 'PGSC0003DMG400027211' => 'stu', 'Phvul.001G221100' => 'pvu', 'Phvul.006G118200' => 'pvu', 'Phvul.007G206800' => 'pvu', 'Phvul.009G213400' => 'pvu', 'Potri.008G105200' => 'ptr', 'Potri.010G145900' => 'ptr', 'Potri.013G000300' => 'ptr', 'Pp3c12_9240' => 'ppa', 'Pp3c16_18760' => 'ppa', 'Pp3c16_20280' => 'ppa', 'Pp3c16_26050' => 'ppa', 'Pp3c25_2610' => 'ppa', 'Pp3c27_7830' => 'ppa', 'Pp3c3_23790' => 'ppa', 'Pp3c4_15350' => 'ppa', 'PRCOL_00004308' => 'pco', 'Prupe.1G117000' => 'ppe', 'Prupe.3G198200' => 'ppe', 'Prupe.4G073900' => 'ppe', 'Prupe.6G302500' => 'ppe', 'Psat1g161560' => 'psa', 'Psat6g156640' => 'psa', 'PSO170G3691' => 'pso', 'PSO170G5320' => 'pso', 'PSO210G3214' => 'pso', 'PSO210G4816' => 'pso', 'PSO223G0068' => 'pso', 'PSO357G0575' => 'pso', 'PSO386G0269' => 'pso', 'PSO407G0039' => 'pso', 'PSO541G1098' => 'pso', 'PSO541G2920' => 'pso', 'PSO541G6232' => 'pso', 'PSO675G2164' => 'pso', 'PSO675G7106' => 'pso', 'PSO675G8787' => 'pso', 'PSO761G0612' => 'pso', 'QL01p054864' => 'qlo', 'QL03p011389' => 'qlo', 'QL06p012343' => 'qlo', 'QL07p028912' => 'qlo', 'QL07p029598' => 'qlo', 'QL08p027966' => 'qlo', 'QL93p0034_0017' => 'qlo', 'QL93p0107_0342' => 'qlo', 'QL93p0331_0094' => 'qlo', 'QL93p0331_0105' => 'qlo', 'RcHm_v2.0_Chr2g0156021' => 'rch', 'RcHm_v2.0_Chr3g0459021' => 'rch', 'RcHm_v2.0_Chr4g0425301' => 'rch', 'RcHm_v2.0_Chr5g0012921' => 'rch', 'Rhsim04G0027500' => 'rsi', 'Rhsim04G0239100' => 'rsi', 'Rhsim11G0107300' => 'rsi', 'Sabra08G0079400' => 'sbr', 'Sabra10G0112400' => 'sbr', 'Sabra11G0071800' => 'sbr', 'Sabra13G0000400' => 'sbr', 'Sabra15G0067300' => 'sbr', 'SalBow2G0537' => 'sbo', 'SalBow4G0394' => 'sbo', 'SalBow4G0827' => 'sbo', 'SalBow7G2520' => 'sbo', 'SalBow7G2643' => 'sbo', 'Sc07g0001860' => 'sci', 'Sc21g0000500' => 'sci', 'Sc25g0003250' => 'sci', 'Sed0008560' => 'sed', 'Sed0011961' => 'sed', 'Sed0016002' => 'sed', 'Sed0017886' => 'sed', 'Sed0024815' => 'sed', 'Sed0026665' => 'sed', 'SEGI_05279' => 'sgi', 'SEGI_05619' => 'sgi', 'SEGI_07510' => 'sgi', 'SEGI_11596' => 'sgi', 'SEGI_13677' => 'sgi', 'SEGI_13909' => 'sgi', 'SEGI_24582' => 'sgi', 'SEGI_27942' => 'sgi', 'SEGI_32327' => 'sgi', 'SEGI_37711' => 'sgi', 'SEGI_40054' => 'sgi', 'SGA_v2.0_scaffold104G30074' => 'sas', 'SGA_v2.0_scaffold158G37435' => 'sas', 'SGA_v2.0_scaffold480G52301' => 'sas', 'SHI10156' => 'shi', 'SMO244G0076' => 'smo', 'Solyc01g059870.4' => 'sly', 'Solyc02g071260.3' => 'sly', 'Solyc05g053410.4' => 'sly', 'Solyc07g045480.3' => 'sly', 'Solyc10g044670.3' => 'sly', 'Sopen01g025180' => 'spe', 'Sopen02g020320' => 'spe', 'Sopen05g031920' => 'spe', 'Sopen07g024020' => 'spe', 'Sopen10g013350' => 'spe', 'Sp1g08170' => 'spa', 'Sp3g15270' => 'spa', 'Sp7g06270' => 'spa', 'Sp7g15980' => 'spa', 'TAR362G0512' => 'tar', 'TAR365G0375' => 'tar', 'TAR624G0294' => 'tar', 'TAR624G1135' => 'tar', 'TAR629G1982' => 'tar', 'TAR629G3382' => 'tar', 'TAR633G0200' => 'tar', 'THA.LOC104806113' => 'tha', 'THA.LOC104816836' => 'tha', 'THA.LOC104820305' => 'tha', 'THA.LOC104820387' => 'tha', 'Thecc.01G195700' => 'tca', 'Thecc.04G301100' => 'tca', 'Thecc.05G331300' => 'tca', 'Thecc.06G157500' => 'tca', 'Thhalv10003554m.g' => 'esa', 'Thhalv10006625m.g' => 'esa', 'Thhalv10019978m.g' => 'esa', 'Thhalv10024253m.g' => 'esa', 'Thhalv10024375m.g' => 'esa', 'TPR.G13753' => 'tpr', 'TPR.G34894' => 'tpr', 'TWI18G1295' => 'twi', 'TWI36G0585' => 'twi', 'TWI53G1065' => 'twi', 'TWI56G0840' => 'twi', 'TWI63G0354' => 'twi', 'unitig_22.g6344' => 'ugi', 'unitig_22.g6345' => 'ugi', 'unitig_699.g19832' => 'ugi', 'unitig_747.g21287' => 'ugi', 'unitig_747.g21288' => 'ugi', 'unitig_8.g2881' => 'ugi', 'unitig_8.g3092' => 'ugi', 'vmacro01649' => 'vma', 'vmacro08044' => 'vma', 'vmacro09482' => 'vma', 'vmacro16294' => 'vma', 'VMungo0540G1101' => 'vmu', 'VMungo0540G1861' => 'vmu', 'VMungo0720G2455' => 'vmu', 'VMungo1080G1583' => 'vmu', 'VMungo1309G0954' => 'vmu', 'VMungo1383G3706' => 'vmu', 'Zm00001eb014850' => 'zma', 'Zm00001eb055460' => 'zma', 'Zm00001eb057490' => 'zma', 'Zm00001eb108000' => 'zma', 'Zm00001eb145780' => 'zma', 'Zm00001eb177810' => 'zma', 'Zm00001eb214800' => 'zma', 'Zm00001eb216020' => 'zma', 'Zm00001eb299260' => 'zma', 'Zm00001eb320110' => 'zma', 'Zm00001eb330930' => 'zma', 'Zm00001eb335170' => 'zma', 'Zm00001eb357230' => 'zma', 'Zm00001eb365320' => 'zma', 'Zm00001eb396030' => 'zma', 'Zm00001eb413310' => 'zma', 'Zm00001eb421080' => 'zma' ) $gf_id = 'HOM05D001060' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001060' ) $data_identifier = 'HOM05D001060' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 2, 'ach' => (int) 12, 'amhyb' => (int) 4, 'aly' => (int) 5, 'aox' => (int) 7, 'arhy' => (int) 12, 'ath' => (int) 5, 'atr' => (int) 6, 'acertr' => (int) 11, 'cqu' => (int) 6, 'bca' => (int) 14, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 9, 'cansat' => (int) 3, 'chi' => (int) 4, 'cru' => (int) 5, 'car' => (int) 4, 'cbr' => (int) 1, 'ccan' => (int) 3, 'cde' => (int) 9, 'cfa' => (int) 5, 'ccl' => (int) 4, 'cil' => (int) 6, 'cla' => (int) 5, 'col' => (int) 6, 'cpa' => (int) 6, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 7, 'din' => (int) 7, 'dzi' => (int) 5, 'eca' => (int) 5, 'bvu' => (int) 3, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 5, 'gma' => (int) 9, 'ghi' => (int) 10, 'gra' => (int) 5, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 5, 'hma' => (int) 3, 'vpl' => (int) 4, 'sun' => (int) 4, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 4, 'lsa' => (int) 7, 'mes' => (int) 4, 'mpo' => (int) 1, 'mbi' => (int) 5, 'mdo' => (int) 11, 'mtr' => (int) 3, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 4, 'nta' => (int) 10, 'nnu' => (int) 7, 'oeu' => (int) 7, 'osa' => (int) 3, 'pax' => (int) 5, 'pgr' => (int) 4, 'stu' => (int) 5, 'pvu' => (int) 4, 'ptr' => (int) 3, 'ppa' => (int) 8, 'pco' => (int) 1, 'ppe' => (int) 4, 'psa' => (int) 2, 'pso' => (int) 15, 'qlo' => (int) 10, 'rch' => (int) 4, 'rsi' => (int) 3, 'sbr' => (int) 5, 'sbo' => (int) 5, 'sci' => (int) 3, 'sed' => (int) 6, 'sgi' => (int) 11, 'sas' => (int) 3, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 5, 'spe' => (int) 5, 'spa' => (int) 4, 'tar' => (int) 7, 'tha' => (int) 4, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 2, 'twi' => (int) 5, 'ugi' => (int) 7, 'vma' => (int) 4, 'vmu' => (int) 6, 'zma' => (int) 17 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb421080' $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